Artificial intelligence publications
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MetaCyc: a multiorganism database of metabolic pathways and enzymes
MetaCyc contains metabolic pathways, enzymatic reactions, enzymes, chemical compounds, genes and review-level comments.
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Reducing Human Fatigue in Interactive Evolutionary Computation through Fuzzy Systems and Machine Learning Systems
We describe two approaches to reducing human fatigue in Interactive Evolutionary Computation (IEC). A predictor function is used to estimate the human user’s score, thus reducing the amount of effort…
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Escherichia coli K-12: a cooperatively developed annotation snapshot 2005
The goal of this group project has been to coordinate and bring up-to-date information on all genes of Escherichia coli K-12. Annotation of the genome of an organism entails identification…
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BioWarehouse: a bioinformatics database warehouse toolkit
We introduce BioWarehouse, an open source toolkit for constructing bioinformatics database warehouses using the MySQL and Oracle relational database managers.
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Software Supported Pattern Development in Intelligence Analysis
This paper describes the GEM pattern language for encoding analysts’ information needs in graphical patterns, and its use in the Link Analysis Workbench (LAW) system to find inexact matches to…
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Issues in Algorithm Characterization for Link Analysis
In this paper, we outline techniques for modeling algorithms that allow a system architecture to reason about their behavior and performance, individually and in combination.
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The Outcomes of Pathway Database Computations Depend on Pathway Ontology
Different biological notions of pathways are used in different pathway databases. Those pathway ontologies significantly impact pathway computations.
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Event Recognition in Airborne Motion Imagery
A system is described that detects high-level events of interest in airborne motion imagery.
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Evidence supporting predicted metabolic pathways for Vibrio cholerae: gene expression data and clinical tests
Using the completed V.cholerae genome sequence and PathoLogic software, we created VchoCyc, a pathway-genome database that predicted 171 likely metabolic pathways in the bacterium.
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The Pathway Tools Cellular Overview Diagram and Omics Viewer
Pathway Tools supports interrogation and exploration of cellular biochemical networks through the overview diagram and a software component called the Omics Viewer.
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A Cognitive Framework for Delegation to an Assistive User Agent
We present a BDI-based framework for a cognitive agent that acts as an assistant to a human user by performing tasks on her behalf. This framework accommodates: (1) user delegation…
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VERL: An ontology framework for representing and annotating video events
This article describes the findings of a recent workshop series that has produced an ontology framework for representing video events-called Video Event Representation Language (VERL) -and a companion annotation framework,…